5hyh - Revision history

OCA at 09:27, 27 September 2023

OCA — Wed, 27 Sep 2023 09:27:14 GMT

←Older revision		Revision as of 09:27, 27 September 2023
Line 3:		Line 3:
	<StructureSection load='5hyh' size='340' side='right'caption='[[5hyh]], [[Resolution\|resolution]] 2.03Å' scene=''>		<StructureSection load='5hyh' size='340' side='right'caption='[[5hyh]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hyh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Strvp Strvp~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HYH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HYH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hyh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_venezuelae_ATCC_10712 Streptomyces venezuelae ATCC 10712]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HYH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HYH FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>~~, ~~<scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.03Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[5hyg\|5hyg]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">SVEN_0924 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=953739 STRVP])~~</td></tr>	+
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [https://pdbe.org/5hyh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [https://www.ebi.ac.uk/pdbsum/5hyh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hyh ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [https://pdbe.org/5hyh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [https://www.ebi.ac.uk/pdbsum/5hyh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hyh ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CMLI_STRVP CMLI_STRVP] Involved in chloramphenicol biosynthesis (PubMed:24347692, PubMed:25564306). Catalyzes the six-electron oxidation of an aryl-amine precursor of chloramphenicol (NH2-CAM) to yield the aryl-nitro group of chloramphenicol (CAM) (PubMed:24347692, PubMed:25564306, PubMed:27203126). During catalysis, upon exposure of the diferrous cluster to O(2), ClmI forms an exceptionally long-lived peroxo intermediate (CmlI-peroxo), which reacts with NH2-CAM to form CAM (PubMed:25564306, PubMed:27203126).<ref>PMID:24347692</ref> <ref>PMID:25564306</ref> <ref>PMID:27203126</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Strvp~~]]	+	[[Category: Streptomyces venezuelae ATCC 10712]]
-	[[Category: Knoot~~, C J~~]]	+	[[Category: Knoot CJ]]
-	[[Category: Lipscomb~~, J D]]~~	+	[[Category: Lipscomb JD]]
-	~~[[Category: Antibiotic biosynthesis]]~~	+
-	~~[[Category: Diiron cluster]]~~	+
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Non-heme iron]]~~	+
-	~~[[Category: Oxygen activation~~]]	+

OCA at 11:27, 23 March 2022

OCA — Wed, 23 Mar 2022 11:27:07 GMT

←Older revision		Revision as of 11:27, 23 March 2022
Line 3:		Line 3:
	<StructureSection load='5hyh' size='340' side='right'caption='[[5hyh]], [[Resolution\|resolution]] 2.03Å' scene=''>		<StructureSection load='5hyh' size='340' side='right'caption='[[5hyh]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hyh]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Strvp Strvp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HYH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5HYH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hyh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Strvp Strvp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HYH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HYH FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hyg\|5hyg]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[5hyg\|5hyg]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SVEN_0924 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=953739 STRVP])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SVEN_0924 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=953739 STRVP])</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [~~http~~://pdbe.org/5hyh PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5hyh PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5hyh ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [https://pdbe.org/5hyh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [https://www.ebi.ac.uk/pdbsum/5hyh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hyh ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:44, 25 December 2019

OCA — Wed, 25 Dec 2019 11:44:42 GMT

←Older revision		Revision as of 11:44, 25 December 2019
Line 1:		Line 1:

	==CmlI (chemically reduced state), arylamine oxygenase of chloramphenicol biosynthetic pathway==		==CmlI (chemically reduced state), arylamine oxygenase of chloramphenicol biosynthetic pathway==
-	<StructureSection load='5hyh' size='340' side='right' caption='[[5hyh]], [[Resolution\|resolution]] 2.03Å' scene=''>	+	<StructureSection load='5hyh' size='340' side='right'caption='[[5hyh]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hyh]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HYH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HYH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hyh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strvp Strvp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HYH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HYH FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hyg\|5hyg]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hyg\|5hyg]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SVEN_0924 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=953739 STRVP])</td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [http://pdbe.org/5hyh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [http://www.ebi.ac.uk/pdbsum/5hyh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hyh ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [http://pdbe.org/5hyh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [http://www.ebi.ac.uk/pdbsum/5hyh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hyh ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Strvp]]
	[[Category: Knoot, C J]]		[[Category: Knoot, C J]]
	[[Category: Lipscomb, J D]]		[[Category: Lipscomb, J D]]

OCA at 05:37, 9 September 2016

OCA — Fri, 09 Sep 2016 05:37:52 GMT

←Older revision		Revision as of 05:37, 9 September 2016
Line 6:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hyg\|5hyg]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hyg\|5hyg]]</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [http://pdbe.org/5hyh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [http://www.ebi.ac.uk/pdbsum/5hyh PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [http://pdbe.org/5hyh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [http://www.ebi.ac.uk/pdbsum/5hyh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hyh ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:25, 20 June 2016

OCA — Mon, 20 Jun 2016 15:25:30 GMT

←Older revision		Revision as of 15:25, 20 June 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5hyh is ~~ON HOLD until Paper~~ Publication	+	==CmlI (chemically reduced state), arylamine oxygenase of chloramphenicol biosynthetic pathway==
		+	<StructureSection load='5hyh' size='340' side='right' caption='[[5hyh]], [[Resolution\|resolution]] 2.03Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5hyh]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HYH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HYH FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hyg\|5hyg]]</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5hyh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hyh OCA], [http://pdbe.org/5hyh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hyh RCSB], [http://www.ebi.ac.uk/pdbsum/5hyh PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The diiron cluster-containing oxygenase CmlI catalyzes the conversion of the aromatic amine precursor of chloramphenicol to the nitroaromatic moiety of the active antibiotic. The X-ray crystal structures of the fully active, N-terminally truncated CmlIDelta33 in the chemically reduced Fe2+/Fe2+ state and a cis mu-1,2(eta 1:eta 1)-peroxo complex are presented. These structures allow comparison with the homologous arylamine oxygenase AurF as well as other types of diiron cluster-containing oxygenases. The structural model of CmlIDelta33 crystallized at pH 6.8 lacks the oxo-bridge apparent from the enzyme optical spectrum in solution at higher pH. In its place, residue E236 forms a mu-1,3(eta 1:eta 2) bridge between the irons in both models. This orientation of E236 stabilizes a helical region near the cluster which closes the active site to substrate binding in contrast to the open site found for AurF. A very similar closed structure was observed for the inactive dimanganese form of AurF. The observation of this same structure in different arylamine oxygenases may indicate that there are two structural states that are involved in regulation of the catalytic cycle. Both the structural studies and single crystal optical spectra indicate that the observed cis mu-1,2(eta 1:eta 1)-peroxo complex differs from the mu-eta 1:eta 2-peroxo proposed from spectroscopic studies of a reactive intermediate formed in solution by addition of O2 to diferrous CmlI. It is proposed that the structural changes required to open the active site also drive conversion of the micro-1,2-peroxo species to the reactive form.

-	~~Authors: Knoot~~, ~~C.J~~., ~~Lipscomb~~, J.D.	+	Crystal structure of CmlI, the arylamine oxygenase from the chloramphenicol biosynthetic pathway.,Knoot CJ, Kovaleva EG, Lipscomb JD J Biol Inorg Chem. 2016 May 26. PMID:27229511<ref>PMID:27229511</ref>

-	~~Description: CmlI (chemically reduced state)~~, ~~arylamine oxygenase~~ of ~~chloramphenicol biosynthetic pathway~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Lipscomb, J.D]]	+	<div class="pdbe-citations 5hyh" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Knoot, C.J~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Knoot, C J]]
		+	[[Category: Lipscomb, J D]]
		+	[[Category: Antibiotic biosynthesis]]
		+	[[Category: Diiron cluster]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Non-heme iron]]
		+	[[Category: Oxygen activation]]

OCA at 01:19, 21 February 2016

OCA — Sun, 21 Feb 2016 01:19:19 GMT

←Older revision		Revision as of 01:19, 21 February 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5hyh is ON HOLD	+	The entry 5hyh is ON HOLD until Paper Publication

	Authors: Knoot, C.J., Lipscomb, J.D.		Authors: Knoot, C.J., Lipscomb, J.D.

OCA: Protected "5hyh" [edit=sysop:move=sysop]

OCA — Wed, 10 Feb 2016 15:54:14 GMT

Protected "5hyh" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:54, 10 February 2016

OCA: New page: '''Unreleased structure''' The entry 5hyh is ON HOLD Authors: Knoot, C.J., Lipscomb, J.D. Description: CmlI (chemically reduced state), arylamine oxygenase of chloramphenicol biosynthe...

OCA — Wed, 10 Feb 2016 15:54:12 GMT

New page: '''Unreleased structure''' The entry 5hyh is ON HOLD Authors: Knoot, C.J., Lipscomb, J.D. Description: CmlI (chemically reduced state), arylamine oxygenase of chloramphenicol biosynthe...

New page

'''Unreleased structure'''

The entry 5hyh is ON HOLD

Authors: Knoot, C.J., Lipscomb, J.D.

Description: CmlI (chemically reduced state), arylamine oxygenase of chloramphenicol biosynthetic pathway
[[Category: Unreleased Structures]]
[[Category: Lipscomb, J.D]]
[[Category: Knoot, C.J]]